RNA 3D Hub //

5JTE Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_5JTE_0011/AA/12:22No text annotation
homologous
HL_4LFB_001
HL_31940.1
HL_5JTE_0061/AA/259:267GNRA related
homologous
HL_5J7L_006
NA
HL_5JTE_0071/AA/296:301GNRA
homologous
HL_5J7L_007
NA
HL_5JTE_0081/AA/320:333No text annotation
homologous
HL_4LFB_008
HL_39665.1
HL_5JTE_0131/AA/522:527No text annotation
geometric
HL_4WF9_003
HL_75660.6
HL_5JTE_0151/AA/689:698No text annotation
homologous
HL_5J7L_015
NA
HL_5JTE_0161/AA/726:731GNRA
homologous
HL_5J7L_016
NA
HL_5JTE_0171/AA/786:796No text annotation
homologous
HL_5J7L_017
NA
HL_5JTE_0191/AA/862:867GNRA
homologous
HL_5J7L_019
NA
HL_5JTE_0201/AA/897:902GNRA
homologous
HL_4LFB_020
HL_34789.1
HL_5JTE_0211/AA/963:972No text annotation
homologous
HL_5J7L_021
NA
HL_5JTE_0231/AA/1076:1081GNRA
homologous
HL_5J7L_023
NA
HL_5JTE_0241/AA/1089:1096T-loop related
homologous
HL_4LFB_025
HL_63894.1
HL_5JTE_0281/AA/1314:1323T-loop with 3 stacked bulged bases
homologous
HL_5J7L_028
NA
HL_5JTE_0291/AA/1356:1366No text annotation
homologous
HL_4LFB_030
HL_86432.1
HL_5JTE_0311/AA/1515:1520GNRA
homologous
HL_5J7L_031
NA
HL_5JTE_0361/AX/31:39tRNA anticodon loop
homologous
HL_4TUE_034
NA
HL_5JTE_0371/AX/53:61T-loop with 2 stacked bulged bases
homologous
HL_6CFJ_108
HL_33597.1
HL_5JTE_0391/AY/31:39tRNA anticodon loop
homologous
HL_6UGG_005
HL_11974.1
HL_5JTE_0411/BA/59:68No text annotation
homologous
HL_5J7L_134
NA
HL_5JTE_0431/BA/123:128No text annotation
homologous
HL_4WF9_003
HL_75660.6
HL_5JTE_0461/BA/194:201No text annotation
homologous
HL_4WF9_006
HL_48677.1
HL_5JTE_0471/BA/225:230No text annotation
homologous
HL_5J7L_140
NA
HL_5JTE_0481/BA/246:252No text annotation
homologous
HL_4WF9_008
HL_76371.1
HL_5JTE_0491/BA/305:312No text annotation
homologous
HL_7RQB_010
NA
HL_5JTE_0501/BA/319:323No text annotation
homologous
HL_5J7L_143
NA
HL_5JTE_0511/BA/327:335T-loop with unstacked turn
homologous
HL_5J7L_144
NA
HL_5JTE_0521/BA/382:392No text annotation
homologous
HL_5J7L_145
NA
HL_5JTE_0531/BA/410:417Pseudoknot geometry
homologous
HL_5J7L_146
NA
HL_5JTE_0541/BA/462:467GNRA
homologous
HL_4WF9_015
HL_34789.1
HL_5JTE_0551/BA/487:493GNRA
homologous
HL_5J7L_148
NA
HL_5JTE_0571/BA/566:575T-loop with 2 stacked bulged bases
homologous
HL_5J7L_150
NA
HL_5JTE_0581/BA/611:617No text annotation
homologous
HL_5J7L_151
NA
HL_5JTE_0591/BA/629:634GNRA
homologous
HL_5J7L_152
NA
HL_5JTE_0601/BA/641:647No text annotation
homologous
HL_5J7L_153
NA
HL_5JTE_0621/BA/744:753No text annotation
homologous
HL_4WF9_023
HL_50204.1
HL_5JTE_0631/BA/779:785No text annotation
geometric
HL_5U3G_001
NA
HL_5JTE_0641/BA/826:831No text annotation
homologous
HL_4WF9_025
HL_27530.1
HL_5JTE_0661/BA/955:962GNRA
homologous
HL_4WF9_027
HL_34789.1
HL_5JTE_0671/BA/978:985No text annotation
homologous
HL_7A0S_027
HL_47171.1
HL_5JTE_0711/BA/1222:1227GNRA
homologous
HL_5J7L_164
NA
HL_5JTE_0721/BA/1281:1289T-loop with 2 stacked bulged bases
homologous
HL_5J7L_165
NA
HL_5JTE_0731/BA/1324:1330Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_166
NA
HL_5JTE_0741/BA/1363:1368GNRA
homologous
HL_5J7L_167
NA
HL_5JTE_0751/BA/1389:1398No text annotation
homologous
HL_7RQB_036
NA
HL_5JTE_0761/BA/1451:1459Mini UNCG
geometric
HL_4V88_192
NA
HL_5JTE_0771/BA/1492:1498Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_170
NA
HL_5JTE_0791/BA/1565:1568No text annotation
homologous
HL_7RQB_039
NA
HL_5JTE_0801/BA/1612:1619No text annotation
homologous
HL_4WF9_038
HL_28592.1
HL_5JTE_0811/BA/1630:1636GNRA
homologous
HL_5J7L_174
NA
HL_5JTE_0821/BA/1691:1696UNCG
homologous
HL_7A0S_042
HL_61337.1
HL_5JTE_0841/BA/1752:1756No text annotation
homologous
HL_7RQB_044
NA
HL_5JTE_0851/BA/1777:1787No text annotation
homologous
HL_4WF9_043
HL_87681.1
HL_5JTE_0861/BA/1806:1811GNRA related
homologous
HL_5J7L_179
NA
HL_5JTE_0881/BA/1910:1920No text annotation
geometric
HL_5TBW_049
NA
HL_5JTE_0891/BA/1949:1957No text annotation
homologous
HL_4WF9_046
HL_61418.1
HL_5JTE_0901/BA/2027:2036No text annotation
homologous
HL_4WF9_047
HL_78372.1
HL_5JTE_0921/BA/2209:2215No text annotation
homologous
HL_5J7L_185
NA
HL_5JTE_0931/BA/2248:2256No text annotation
homologous
HL_4WF9_049
HL_11974.1
HL_5JTE_0941/BA/2264:2276No text annotation
homologous
HL_4WF9_050
HL_02042.1
HL_5JTE_1201/BA/2304:2312No text annotation
homologous
HL_9DFE_198
HL_02452.1
HL_5JTE_0961/BA/2324:2331Pseudoknot geometry
homologous
HL_5J7L_189
NA
HL_5JTE_0971/BA/2356:2361GNRA
homologous
HL_5J7L_190
NA
HL_5JTE_0981/BA/2374:2379GNRA
homologous
HL_4WF9_054
HL_34789.1
HL_5JTE_0991/BA/2404:2413No text annotation
homologous
HL_5J7L_192
NA
HL_5JTE_1001/BA/2471:2479No text annotation
homologous
HL_7A0S_059
HL_52011.1
HL_5JTE_1011/BA/2528:2535GNRA variation
homologous
HL_5J7L_194
NA
HL_5JTE_1021/BA/2551:2557No text annotation
homologous
HL_4WF9_058
HL_48677.1
HL_5JTE_1031/BA/2594:2599GNRA
homologous
HL_7RQB_063
NA
HL_5JTE_1051/BA/2701:2706Ribsomal LSU H95
homologous
HL_5J7L_198
NA
HL_5JTE_1061/BA/2745:2759No text annotation
homologous
HL_5J7L_199
NA
HL_5JTE_1081/BA/2819:2827No text annotation
homologous
HL_5J7L_201
NA
HL_5JTE_1111/BB/86:90Mini UNCG
homologous
HL_5J7L_204
NA

Problematic loops

#loop idProblemSequence
HL_5JTE_002No text annotation
HL_5JTE_117No text annotation
HL_5JTE_003GNRA
HL_5JTE_004GNRA
HL_5JTE_005UNCG
HL_5JTE_009UNCG
HL_5JTE_010GNRA
HL_5JTE_011UNCG
HL_5JTE_012GNRA wlth extra near cWW
HL_5JTE_014GNRA-like with tWH
HL_5JTE_018No text annotation
HL_5JTE_022GNRA
HL_5JTE_112No text annotation
HL_5JTE_025No text annotation
HL_5JTE_026GNRA
HL_5JTE_027GNRA
HL_5JTE_030UNCG
HL_5JTE_032No text annotation
HL_5JTE_033No text annotation
HL_5JTE_113tRNA anticodon loop
HL_5JTE_034T-loop with 2 stacked bulged bases
HL_5JTE_035tRNA D-loop
HL_5JTE_038No text annotation
HL_5JTE_040T-loop with 2 stacked bulged bases
HL_5JTE_042No text annotation
HL_5JTE_044No text annotation
HL_5JTE_045No text annotation
HL_5JTE_056No text annotation
HL_5JTE_061GNRA wlth tandem sheared
HL_5JTE_065No text annotation
HL_5JTE_114No text annotation
HL_5JTE_068No text annotation
HL_5JTE_118No text annotation
HL_5JTE_069GNRA wlth tandem sheared
HL_5JTE_070No text annotation
HL_5JTE_119No text annotation
HL_5JTE_078No text annotation
HL_5JTE_115UNCG
HL_5JTE_083UNCG variation
HL_5JTE_087GNRA variation
HL_5JTE_091No text annotation
HL_5JTE_095No text annotation
HL_5JTE_104GNRA
HL_5JTE_107No text annotation
HL_5JTE_109GNRA
HL_5JTE_116No text annotation
HL_5JTE_110No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_5JTE_0011/AA/30:32,
1/AA/552:553		Single bulged G
homologous
IL_5J7L_001
NA
IL_5JTE_0031/AA/47:52,
1/AA/359:361		No text annotation
geometric
IL_5J7L_003
NA
IL_5JTE_0051/AA/63:66,
1/AA/103:104		Multiple bulged bases
homologous
IL_4LFB_005
IL_71421.1
IL_5JTE_0061/AA/67:69,
1/AA/99:102		Minor groove platform with extra cWW
homologous
IL_5J7L_006
NA
IL_5JTE_0091/AA/128:131,
1/AA/231:233		Isolated non-canonical cWW pair
homologous
IL_5J7L_009
NA
IL_5JTE_0101/AA/132:136,
1/AA/227:230		Minor groove platform related
homologous
IL_5J7L_010
NA
IL_5JTE_0121/AA/147:153,
1/AA/168:175		tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
NA
IL_5JTE_0141/AA/242:247,
1/AA/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
NA
IL_5JTE_0161/AA/292:293,
1/AA/304:308		C-loop
homologous
IL_5J7L_016
NA
IL_5JTE_0241/AA/504:511,
1/AA/540:541		SSU/LSU pseudoknot
homologous
IL_4LFB_020
IL_11411.1
IL_5JTE_0261/AA/569:575,
1/AA/880:881		No text annotation
homologous
IL_6CZR_134
NA
IL_5JTE_0271/AA/580:584,
1/AA/757:761		tSH-tHW-tHS
homologous
IL_5J7L_027
NA
IL_5JTE_0291/AA/597:598,
1/AA/640:643		Major groove minor groove platform; mini C-loop
homologous
IL_4LFB_025
IL_73108.1
IL_5JTE_0311/AA/654:655,
1/AA/751:754		Major groove platform; stack outside cWW
geometric
IL_4LFB_027
IL_74641.1
IL_5JTE_0331/AA/662:666,
1/AA/740:743		Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
NA
IL_5JTE_1851/AA/673:677,
1/AA/713:717		Triple non-canonical cWW pairs
geometric
IL_4LFB_065
IL_71154.1
IL_5JTE_0341/AA/684:688,
1/AA/699:706		Kink-turn
homologous
IL_5J7L_035
NA
IL_5JTE_0351/AA/774:778,
1/AA/804:805		Left turn
homologous
IL_4LFB_032
IL_29346.3
IL_5JTE_0361/AA/779:783,
1/AA/799:803		tSH-tHW-tHS
homologous
IL_5J7L_037
NA
IL_5JTE_0371/AA/887:894,
1/AA/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_5J7L_038
NA
IL_5JTE_0381/AA/922:923,
1/AA/1393:1395		Single bulged A
homologous
IL_5J7L_039
NA
IL_5JTE_0391/AA/925:927,
1/AA/1390:1391		Single bulged G
homologous
IL_4LFB_036
IL_28408.1
IL_5JTE_0401/AA/933:935,
1/AA/1380:1384		Minor groove platform
homologous
IL_5J7L_041
NA
IL_5JTE_0411/AA/953:954,
1/AA/1226:1228		Minor groove platform
homologous
IL_5J7L_042
NA
IL_5JTE_0451/AA/1048:1050,
1/AA/1208:1209		Single bulged U
homologous
IL_5J7L_046
NA
IL_5JTE_0461/AA/1052:1056,
1/AA/1204:1206		Isolated cWS basepair
homologous
IL_4LFB_044
IL_82453.1
IL_5JTE_0471/AA/1057:1058,
1/AA/1199:1203		Minor groove platform
homologous
IL_4LFB_045
IL_24264.1
IL_5JTE_0481/AA/1060:1061,
1/AA/1195:1197		Single bulged A
geometric
IL_5J7L_049
NA
IL_5JTE_0491/AA/1061:1063,
1/AA/1193:1195		Isolated non-canonical cWW pair
geometric
IL_5J7L_050
NA
IL_5JTE_0531/AA/1247:1253,
1/AA/1284:1290		No text annotation
homologous
IL_5J7L_054
NA
IL_5JTE_0561/AA/1303:1308,
1/AA/1329:1334		No text annotation
homologous
IL_5J7L_057
NA
IL_5JTE_0571/AA/1399:1401,
1/AA/1501:1504		No text annotation
homologous
IL_5J7L_058
NA
IL_5JTE_0581/AA/1401:1404,
1/AA/1497:1501		No text annotation
homologous
IL_5J7L_059
NA
IL_5JTE_0591/AA/1405:1407,
1/AA/1494:1496		Isolated non-canonical cWW pair
geometric
IL_4PCJ_001
IL_68118.1
IL_5JTE_0601/AA/1407:1409,
1/AA/1491:1494		Isolated cWH basepair
geometric
IL_2W2H_002
NA
IL_5JTE_0611/AA/1412:1414,
1/AA/1486:1488		Isolated non-canonical cWW pair
homologous
IL_5J7L_061
NA
IL_5JTE_0621/AA/1416:1419,
1/AA/1481:1484		Double sheared
homologous
IL_6CZR_169
NA
IL_5JTE_0631/AA/1430:1435,
1/AA/1466:1470		Triple sheared related
homologous
IL_5J7L_063
NA
IL_5JTE_0661/BA/24:30,
1/BA/510:516		Triple sheared with non-canonical cWW
geometric
IL_5J7L_245
NA
IL_5JTE_0671/BA/36:37,
1/BA/442:444		Single bulged A
homologous
IL_7RQB_002
NA
IL_5JTE_0701/BA/188:194,
1/BA/201:208		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5J7L_250
NA
IL_5JTE_0711/BA/239:245,
1/BA/253:258		7x6 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_251
NA
IL_5JTE_0721/BA/269:271,
1/BA/366:370		No text annotation
homologous
IL_5J7L_252
NA
IL_5JTE_0741/BA/293:295,
1/BA/343:347		No text annotation
homologous
IL_5J7L_254
NA
IL_5JTE_0751/BA/481:484,
1/BA/496:509		No text annotation
geometric
IL_5J7L_255
NA
IL_5JTE_0761/BA/536:539,
1/BA/554:557		Double sheared
homologous
IL_5J7L_256
NA
IL_5JTE_0771/BA/564:566,
1/BA/575:577		Isolated non-canonical cWW pair
geometric
IL_5J7L_257
NA
IL_5JTE_0781/BA/598:599,
1/BA/657:659		Single stack bend
geometric
IL_4V83_236
IL_15011.1
IL_5JTE_0791/BA/599:601,
1/BA/656:657		Single stack bend
geometric
IL_7RQB_058
NA
IL_5JTE_0801/BA/606:610,
1/BA/618:622		AAA cross-strand stack
homologous
IL_5J7L_258
NA
IL_5JTE_0811/BA/672:674,
1/BA/806:808		Isolated non-canonical cWW pair
geometric
IL_5J7L_259
NA
IL_5JTE_0821/BA/674:678,
1/BA/799:806		tHW-tHW cross-strand stack
homologous
IL_5J7L_260
NA
IL_5JTE_0831/BA/697:698,
1/BA/763:765		Single bulged A
geometric
IL_5J7L_261
NA
IL_5JTE_0841/BA/702:703,
1/BA/728:730		Single bulged G
geometric
IL_4V9F_026
IL_28408.1
IL_5JTE_0851/BA/703:707,
1/BA/724:728		Triple sheared
homologous
IL_4WF9_024
IL_15190.1
IL_5JTE_0861/BA/738:740,
1/BA/757:758		Major groove platform
homologous
IL_5J7L_264
NA
IL_5JTE_0871/BA/775:777,
1/BA/787:791		Multiple bulged bases
homologous
IL_5J7L_265
NA
IL_5JTE_0881/BA/837:838,
1/BA/940:942		Single stack bend
homologous
IL_7RQB_024
NA
IL_5JTE_1811/BA/844:848,
1/BA/930:934		No text annotation
geometric
IL_5J7L_399
NA
IL_5JTE_0901/BA/847:848,
1/BA/930:933		Stack outside cWW
geometric
IL_5J7L_268
NA
IL_5JTE_0911/BA/850:851,
1/BA/926:928		Single stack bend
homologous
IL_5J7L_269
NA
IL_5JTE_0921/BA/856:862,
1/BA/915:921		7x7 Sarcin-Ricin with intercalated A; G-bulge
geometric
IL_5J7L_270
NA
IL_5JTE_0931/BA/862:863,
1/BA/913:915		Single bulged G
homologous
IL_5J7L_271
NA
IL_5JTE_0941/BA/864:868,
1/BA/909:912		C-loop with bulged stacked A's
homologous
IL_5J7L_272
NA
IL_5JTE_0951/BA/870:872,
1/BA/905:907		Isolated cWS basepair
homologous
IL_4WF9_034
NA
IL_5JTE_0961/BA/875:879,
1/BA/898:902		Double sheared with non-canonical cWW
homologous
IL_5J7L_274
NA
IL_5JTE_0981/BA/994:996,
1/BA/1159:1160		Single bulged C
homologous
IL_4WF9_035
IL_05642.1
IL_5JTE_0991/BA/998:1002,
1/BA/1153:1157		UAA/GAN
homologous
IL_4WF9_036
IL_08938.1
IL_5JTE_1001/BA/1004:1011,
1/BA/1150:1151		SSU/LSU pseudoknot
homologous
IL_4WF9_037
IL_11411.1
IL_5JTE_1011/BA/1011:1013,
1/BA/1149:1150		Single bulged U
geometric
IL_7RQB_038
NA
IL_5JTE_1021/BA/1018:1024,
1/BA/1140:1144		Kink-turn related
homologous
IL_5J7L_280
NA
IL_5JTE_1031/BA/1024:1030,
1/BA/1124:1140		No text annotation
geometric
IL_5J7L_281
NA
IL_5JTE_1041/BA/1031:1034,
1/BA/1121:1123		Isolated non-canonical cWW pair
homologous
IL_5J7L_282
NA
IL_5JTE_1081/BA/1196:1198,
1/BA/1247:1250		Isolated cWS basepair
homologous
IL_4WF9_044
IL_42997.4
IL_5JTE_1091/BA/1202:1206,
1/BA/1240:1243		No text annotation
homologous
IL_5J7L_287
NA
IL_5JTE_1101/BA/1208:1215,
1/BA/1234:1238		Kink-turn
homologous
IL_5J7L_288
NA
IL_5JTE_1111/BA/1262:1269,
1/BA/2011:2017		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
NA
IL_5JTE_1871/BA/1310:1313,
1/BA/1603:1604		Major groove platform; stack outside cWW
homologous
IL_9DFE_049
IL_74641.1
IL_5JTE_1121/BA/1319:1323,
1/BA/1331:1333		C-loop
homologous
IL_5J7L_291
NA
IL_5JTE_1881/BA/1351:1353,
1/BA/1379:1380		Single stack bend with SAM intercalation
geometric
IL_6FZ0_001
NA
IL_5JTE_1131/BA/1351:1355,
1/BA/1376:1380		UAA/GAN
homologous
IL_5J7L_292
NA
IL_5JTE_1891/BA/1353:1355,
1/BA/1376:1379		No text annotation
IL_5JTE_1141/BA/1357:1361,
1/BA/1370:1374		tSH-tHW-tHS
homologous
IL_5J7L_293
NA
IL_5JTE_1171/BA/1432:1435,
1/BA/1557:1561		Tandem non-canonical cWW pairs
homologous
IL_5J7L_296
NA
IL_5JTE_1181/BA/1437:1440,
1/BA/1551:1555		tSH-tHW
homologous
IL_5J7L_297
NA
IL_5JTE_1191/BA/1450:1451,
1/BA/1459:1461		Single bulged U
homologous
IL_5J7L_298
NA
IL_5JTE_1201/BA/1468:1471,
1/BA/1520:1524		No text annotation
homologous
IL_5J7L_299
NA
IL_5JTE_1211/BA/1474:1478,
1/BA/1513:1517		tSH-tHW-tHS
homologous
IL_5J7L_300
NA
IL_5JTE_1251/BA/1651:1656,
1/BA/2004:2006		No text annotation
homologous
IL_7RQB_064
NA
IL_5JTE_1261/BA/1663:1665,
1/BA/1995:1997		Isolated tWW turn
homologous
IL_5J7L_305
NA
IL_5JTE_1271/BA/1666:1669,
1/BA/1993:1994		Major groove platform; stack outside cWW
geometric
IL_7RQB_066
NA
IL_5JTE_1831/BA/1666:1674,
1/BA/1990:1994		No text annotation
homologous
IL_4WF9_117
IL_80252.1
IL_5JTE_1281/BA/1669:1674,
1/BA/1990:1993		Intercalated tWH
homologous
IL_4WF9_065
IL_28217.1
IL_5JTE_1291/BA/1686:1691,
1/BA/1696:1702		tSH-tSH-tHH-tHS
geometric
IL_5J7L_308
NA
IL_5JTE_1301/BA/1712:1718,
1/BA/1742:1746		6x5 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_309
NA
IL_5JTE_1321/BA/1770:1771,
1/BA/1980:1982		Single bulged A
homologous
IL_5J7L_312
NA
IL_5JTE_1331/BA/1798:1804,
1/BA/1813:1821		Kink-turn related
homologous
IL_5J7L_313
NA
IL_5JTE_1341/BA/1837:1840,
1/BA/1902:1903		Minor groove platform, major groove intercalation
homologous
IL_5J7L_314
NA
IL_5JTE_1351/BA/1841:1842,
1/BA/1898:1901		Major groove intercalation
homologous
IL_5J7L_315
NA
IL_5JTE_1361/BA/1846:1849,
1/BA/1893:1894		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_316
NA
IL_5JTE_1841/BA/1851:1860,
1/BA/1882:1891		No text annotation
homologous
IL_5J7L_387
NA
IL_5JTE_1381/BA/1933:1934,
1/BA/1964:1967		Bulged stacked bases
geometric
IL_5J7L_318
NA
IL_5JTE_1391/BA/1934:1945,
1/BA/1961:1964		No text annotation
homologous
IL_7A0S_072
IL_04332.3
IL_5JTE_1401/BA/2050:2052,
1/BA/2617:2618		Major groove platform
homologous
IL_5J7L_320
NA
IL_5JTE_1411/BA/2054:2056,
1/BA/2612:2615		No text annotation
homologous
IL_5J7L_321
NA
IL_5JTE_1421/BA/2067:2069,
1/BA/2442:2443		Single bulged U
homologous
IL_7RQB_080
NA
IL_5JTE_1431/BA/2070:2071,
1/BA/2438:2441		Minor groove platform
homologous
IL_7RQB_081
NA
IL_5JTE_1441/BA/2081:2083,
1/BA/2236:2239		Isolated tHS basepair with bulges
homologous
IL_5J7L_325
NA
IL_5JTE_1451/BA/2085:2087,
1/BA/2232:2234		Isolated non-canonical cWW pair
homologous
IL_5J7L_326
NA
IL_5JTE_1511/BA/2202:2204,
1/BA/2220:2221		Single bulged U
homologous
IL_5J7L_331
NA
IL_5JTE_1521/BA/2350:2353,
1/BA/2364:2367		Double sheared
homologous
IL_7RQB_089
NA
IL_5JTE_1531/BA/2401:2403,
1/BA/2414:2415		No text annotation
IL_5JTE_1901/BA/2453:2454,
1/BA/2498:2500		Single stack bend
homologous
IL_5J7L_391
NA
IL_5JTE_1541/BA/2454:2455,
1/BA/2496:2498		Major groove platform
homologous
IL_7RQB_092
NA
IL_5JTE_1551/BA/2457:2459,
1/BA/2493:2494		Major groove platform
homologous
IL_4WF9_091
IL_48076.7
IL_5JTE_1561/BA/2459:2461,
1/BA/2489:2493		Major groove minor groove platform with extra cWW
geometric
IL_5J7L_337
NA
IL_5JTE_1571/BA/2466:2470,
1/BA/2480:2484		Double sheared with non-canonical cWW
homologous
IL_5J7L_338
NA
IL_5JTE_1581/BA/2507:2508,
1/BA/2580:2582		Major groove platform
homologous
IL_4WF9_094
IL_46637.1
IL_5JTE_1591/BA/2510:2512,
1/BA/2574:2578		Isolated non-canonical cWW with bulges
homologous
IL_7RQB_097
NA
IL_5JTE_1601/BA/2512:2513,
1/BA/2571:2574		No text annotation
geometric
IL_5J7L_341
NA
IL_5JTE_1611/BA/2522:2523,
1/BA/2540:2543		Major groove platform with intercalation
homologous
IL_5J7L_342
NA
IL_5JTE_1621/BA/2591:2592,
1/BA/2601:2603		Single bulged A
homologous
IL_7RQB_101
NA
IL_5JTE_1631/BA/2636:2640,
1/BA/2774:2782		tSH-tHS-tHW
homologous
IL_5J7L_345
NA
IL_5JTE_1641/BA/2652:2658,
1/BA/2663:2668		Sarcin-Ricin target in LSU H95; G-bulge
geometric
IL_5J7L_346
NA
IL_5JTE_1651/BA/2680:2684,
1/BA/2725:2727		C-loop
homologous
IL_5J7L_347
NA
IL_5JTE_1661/BA/2687:2691,
1/BA/2718:2722		UAA/GAN related, with intercalation
homologous
IL_5J7L_348
NA
IL_5JTE_1671/BA/2695:2696,
1/BA/2711:2714		Multiple bulged bases
homologous
IL_5J7L_349
NA
IL_5JTE_1681/BA/2737:2742,
1/BA/2762:2767		UAA/GAN with extra cWW
homologous
IL_5J7L_350
NA
IL_5JTE_1701/BA/2806:2811,
1/BA/2889:2892		No text annotation
geometric
IL_5J7L_351
NA
IL_5JTE_1711/BA/2838:2839,
1/BA/2878:2880		Single bulged C
homologous
IL_7RQB_108
NA
IL_5JTE_1721/BA/2843:2846,
1/BA/2870:2874		Multiple bulged bases with non-canonical cWW
homologous
IL_5J7L_353
NA
IL_5JTE_1731/BA/2847:2852,
1/BA/2865:2869		tHS double platform
homologous
IL_7RQB_110
NA
IL_5JTE_1911/BB/30:31,
1/BB/51:54		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_357
NA
IL_5JTE_1781/BB/71:79,
1/BB/97:105		Bacterial 5S Loop E
homologous
IL_5J7L_359
NA

Problematic loops

#loop idProblemSequence
IL_5JTE_002Single bulged A
IL_5JTE_004Minor groove platform
IL_5JTE_007Minor groove platform
IL_5JTE_008Major groove intercalation
IL_5JTE_011Isolated cWH basepair
IL_5JTE_013No text annotation
IL_5JTE_179No text annotation
IL_5JTE_015No text annotation
IL_5JTE_017Single bulged U
IL_5JTE_018C-loop
IL_5JTE_019Single bulged G
IL_5JTE_020No text annotation
IL_5JTE_021No text annotation
IL_5JTE_022tSH-tHW-tWW
IL_5JTE_023No text annotation
IL_5JTE_025Kink-turn related
IL_5JTE_028Major groove platform
IL_5JTE_030No text annotation
IL_5JTE_032Single stack bend
IL_5JTE_042Minor groove platform
IL_5JTE_043Single stack bend
IL_5JTE_186No text annotation
IL_5JTE_044No text annotation
IL_5JTE_180No text annotation
IL_5JTE_050No text annotation
IL_5JTE_051Minor groove platform
IL_5JTE_052No text annotation
IL_5JTE_054180 degree turn
IL_5JTE_055Double sheared with non-canonical cWW
IL_5JTE_064Single bulged A
IL_5JTE_065No text annotation
IL_5JTE_068Minor groove platform
IL_5JTE_069No text annotation
IL_5JTE_073No text annotation
IL_5JTE_08990 degree turn
IL_5JTE_097No text annotation
IL_5JTE_105Tandem non-canonical cWW pairs
IL_5JTE_106Kink-turn
IL_5JTE_107No text annotation
IL_5JTE_115No text annotation
IL_5JTE_116UAA/GAN
IL_5JTE_122180 degree turn
IL_5JTE_123Single bulged A
IL_5JTE_182UAA/GAN variation
IL_5JTE_124Triple sheared related
IL_5JTE_131Triple sheared
IL_5JTE_137UAA/GAN related
IL_5JTE_146Isolated non-canonical cWW pair
IL_5JTE_147Isolated non-canonical cWW pair
IL_5JTE_148No text annotation
IL_5JTE_149No text annotation
IL_5JTE_150Kink-turn
IL_5JTE_169Single bulged A
IL_5JTE_174Major groove intercalation
IL_5JTE_175No text annotation
IL_5JTE_176No text annotation
IL_5JTE_177Symmetric double minor groove platform

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_5JTE_0261/AA/46:52,
1/AA/359:367,
1/AA/393:395		No text annotation
homologous
J3_5J7L_050
NA
J3_5JTE_0021/AA/586:588,
1/AA/651:654,
1/AA/754:755		No text annotation
homologous
J3_5J7L_002
NA
J3_5JTE_0271/AA/586:588,
1/AA/651:655,
1/AA/751:755		No text annotation
homologous
J3_5J7L_051
NA
J3_5JTE_0361/AA/672:673,
1/AA/717:725,
1/AA/732:734		No text annotation
homologous
J3_5J7L_003
NA
J3_5JTE_0031/AA/826:829,
1/AA/857:861,
1/AA/868:874		No text annotation
homologous
J3_5J7L_004
NA
J3_5JTE_0041/AA/936:939,
1/AA/1344:1350,
1/AA/1372:1379		No text annotation
homologous
J3_4LFB_002
J3_85722.1
J3_5JTE_0051/AA/943:946,
1/AA/1235:1237,
1/AA/1337:1340		No text annotation
homologous
J3_5J7L_005
NA
J3_5JTE_0061/AA/955:962,
1/AA/973:984,
1/AA/1221:1225		No text annotation
homologous
J3_5J7L_006
NA
J3_5JTE_0071/AA/990:993,
1/AA/1045:1047,
1/AA/1210:1215		No text annotation
homologous
J3_6CZR_021
NA
J3_5JTE_0291/AA/990:997,
1/AA/1044:1047,
1/AA/1210:1215		No text annotation
homologous
J3_5J7L_053
NA
J3_5JTE_0081/AA/1063:1068,
1/AA/1107:1113,
1/AA/1187:1193		No text annotation
homologous
J3_4LFB_007
J3_01343.1
J3_5JTE_0091/AA/1073:1074,
1/AA/1083:1087,
1/AA/1098:1102		No text annotation
homologous
J3_5J7L_009
NA
J3_5JTE_0101/AA/1116:1118,
1/AA/1155:1158,
1/AA/1181:1184		No text annotation
homologous
J3_5J7L_010
NA
J3_5JTE_0301/AA/1116:1118,
1/AA/1155:1161,
1/AA/1175:1184		No text annotation
homologous
J3_4LFB_018
J3_40706.1
J3_5JTE_0121/BA/30:31,
1/BA/474:481,
1/BA/509:510		No text annotation
homologous
J3_7RQB_001
NA
J3_5JTE_0311/BA/30:31,
1/BA/474:484,
1/BA/496:510		No text annotation
homologous
J3_5J7L_066
NA
J3_5JTE_0321/BA/32:35,
1/BA/445:461,
1/BA/468:473		No text annotation
homologous
J3_5J7L_067
NA
J3_5JTE_0371/BA/56:57,
1/BA/70:76,
1/BA/110:114		No text annotation
homologous
J3_5J7L_037
NA
J3_5JTE_0141/BA/683:689,
1/BA/773:775,
1/BA/791:794		No text annotation
homologous
J3_5J7L_038
NA
J3_5JTE_0151/BA/698:700,
1/BA/732:736,
1/BA/760:763		No text annotation
homologous
J3_7RQB_005
NA
J3_5JTE_0171/BA/1298:1303,
1/BA/1625:1627,
1/BA/1639:1642		No text annotation
homologous
J3_5J7L_041
NA
J3_5JTE_0181/BA/1306:1309,
1/BA/1605:1611,
1/BA/1620:1622		No text annotation
homologous
J3_5J7L_042
NA
J3_5JTE_0191/BA/1344:1349,
1/BA/1382:1385,
1/BA/1402:1403		No text annotation
homologous
J3_5J7L_043
NA
J3_5JTE_0341/BA/1424:1429,
1/BA/1564:1565,
1/BA/1568:1574		No text annotation
homologous
J3_5J7L_069
NA
J3_5JTE_0201/BA/2091:2093,
1/BA/2196:2200,
1/BA/2223:2228		Kink-turn 3-way junction
homologous
J3_5J7L_044
NA
J3_5JTE_0351/BA/2282:2284,
1/BA/2384:2395,
1/BA/2421:2427		No text annotation
homologous
J3_5J7L_070
NA
J3_5JTE_0211/BA/2295:2299,
1/BA/2317:2323,
1/BA/2332:2337		No text annotation
homologous
J3_5J7L_071
NA
J3_5JTE_0221/BA/2517:2520,
1/BA/2545:2547,
1/BA/2561:2567		No text annotation
homologous
J3_5J7L_046
NA
J3_5JTE_0241/BA/2812:2815,
1/BA/2831:2836,
1/BA/2882:2888		No text annotation
homologous
J3_5J7L_048
NA
J4_5JTE_0011/AA/115:122,
1/AA/239:240,
1/AA/286:289,
1/AA/311:312		No text annotation
homologous
J4_5J7L_001
NA
J4_5JTE_0031/AA/575:577,
1/AA/764:769,
1/AA/810:821,
1/AA/879:880		No text annotation
homologous
J4_5J7L_003
NA
J4_5JTE_0051/AX/7:10,
1/AX/25:27,
1/AX/43:50,
1/AX/64:66		No text annotation
J4_5JTE_0061/AY/7:10,
1/AY/25:27,
1/AY/43:49,
1/AY/65:66		tRNA junction
homologous
J4_3WQY_001
J4_58311.1
J4_5JTE_0071/BA/268:269,
1/BA/370:375,
1/BA/399:406,
1/BA/421:424		No text annotation
homologous
J4_5J7L_018
NA
J4_5JTE_0081/BA/297:301,
1/BA/316:319,
1/BA/323:325,
1/BA/337:341		No text annotation
homologous
J4_5J7L_019
NA
J4_5JTE_0091/BA/601:604,
1/BA/624:628,
1/BA/635:638,
1/BA/650:656		No text annotation
homologous
J4_5J7L_020
NA
J4_5JTE_0101/BA/1270:1276,
1/BA/1294:1295,
1/BA/1645:1648,
1/BA/2009:2010		No text annotation
homologous
J4_5J7L_021
NA
J4_5JTE_0111/BA/1310:1314,
1/BA/1338:1343,
1/BA/1404:1405,
1/BA/1597:1604		No text annotation
homologous
J4_5J7L_022
NA
J4_5JTE_0171/BA/1313:1314,
1/BA/1338:1343,
1/BA/1404:1405,
1/BA/1597:1603		No text annotation
homologous
J4_5J7L_023
NA
J4_5JTE_0121/BA/1444:1445,
1/BA/1466:1467,
1/BA/1525:1526,
1/BA/1546:1547		No text annotation
homologous
J4_5J7L_024
NA
J4_5JTE_0131/BA/1772:1776,
1/BA/1788:1792,
1/BA/1827:1830,
1/BA/1975:1979		No text annotation
homologous
J4_5J7L_025
NA
J4_5JTE_0141/BA/1833:1835,
1/BA/1905:1906,
1/BA/1924:1933,
1/BA/1967:1972		No text annotation
homologous
J4_5J7L_026
NA
J4_5JTE_0181/BA/2285:2289,
1/BA/2343:2347,
1/BA/2370:2372,
1/BA/2381:2383		No text annotation
homologous
J4_9DFE_009
J4_98139.1
J4_5JTE_0161/BA/2643:2646,
1/BA/2674:2676,
1/BA/2731:2735,
1/BA/2769:2771		No text annotation
homologous
J4_5J7L_028
NA
J5_5JTE_0031/AA/58:61,
1/AA/106:113,
1/AA/314:316,
1/AA/337:339,
1/AA/350:354		No text annotation
homologous
J5_5J7L_003
NA
J5_5JTE_0101/BA/47:54,
1/BA/116:121,
1/BA/130:131,
1/BA/148:150,
1/BA/176:178		No text annotation
homologous
J5_5J7L_013
NA
J5_5JTE_0051/BA/531:533,
1/BA/560:564,
1/BA/577:579,
1/BA/1261:1262,
1/BA/2017:2018		No text annotation
homologous
J5_5J7L_014
NA
J5_5JTE_0061/BA/584:589,
1/BA/668:671,
1/BA/809:812,
1/BA/1195:1196,
1/BA/1250:1256		No text annotation
homologous
J5_5J7L_015
NA
J5_5JTE_0071/BA/1674:1682,
1/BA/1706:1707,
1/BA/1751:1752,
1/BA/1756:1764,
1/BA/1988:1990		No text annotation
homologous
J5_5J7L_016
NA
J5_5JTE_0111/BA/2057:2064,
1/BA/2446:2453,
1/BA/2500:2507,
1/BA/2582:2588,
1/BA/2606:2611		No text annotation
J5_5JTE_0091/BA/2074:2077,
1/BA/2243:2246,
1/BA/2258:2259,
1/BA/2281:2282,
1/BA/2427:2435		No text annotation
homologous
J5_7A0S_007
J5_39529.2
J6_5JTE_0011/BA/45:46,
1/BA/179:184,
1/BA/212:224,
1/BA/231:235,
1/BA/262:266,
1/BA/426:433		No text annotation
J6_5JTE_0021/BA/2074:2077,
1/BA/2243:2246,
1/BA/2258:2259,
1/BA/2281:2284,
1/BA/2384:2395,
1/BA/2421:2435		No text annotation
J7_5JTE_0011/BA/8:15,
1/BA/525:531,
1/BA/2018:2023,
1/BA/2040:2043,
1/BA/2625:2630,
1/BA/2788:2789,
1/BA/2894:2895		No text annotation
J7_5JTE_0021/BA/817:822,
1/BA/835:838,
1/BA/940:946,
1/BA/971:976,
1/BA/987:991,
1/BA/1163:1164,
1/BA/1185:1190		No text annotation

Problematic loops

#loop idProblemSequence
J3_5JTE_001No text annotation
J3_5JTE_028No text annotation
J3_5JTE_011No text annotation
J3_5JTE_013No text annotation
J3_5JTE_038No text annotation
J3_5JTE_016No text annotation
J3_5JTE_033No text annotation
J3_5JTE_023No text annotation
J3_5JTE_025No text annotation
J4_5JTE_002No text annotation
J4_5JTE_004tRNA junction
J4_5JTE_015No text annotation
J5_5JTE_001No text annotation
J5_5JTE_002No text annotation
J5_5JTE_004No text annotation
J5_5JTE_008No text annotation

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